ci: set up release please for pypi

.github/workflows/release-please.yaml

@@ -0,0 +1,79 @@
+name: Release Please
+
+on:
+  workflow_dispatch:
+  push:
+    branches:
+      - main
+  pull_request:
+
+# cancel in-progress runs that use the same workflow and branch
+concurrency:
+  group: ${{ github.workflow }}-${{ github.ref }}
+  cancel-in-progress: true
+
+jobs:
+  release-please:
+    name: Create Release PRs
+    runs-on: ubuntu-latest
+    # Only run release-please on pushes to main, not on PRs
+    if: github.event_name == 'push' && github.ref == 'refs/heads/main'
+    permissions:
+      contents: write
+      issues: write
+      pull-requests: write
+    steps:
+      # Generate token using your organization's GitHub App
+      - name: Generate token
+        id: generate_token
+        uses: actions/create-github-app-token@v1
+        with:
+          app-id: ${{ secrets.GH_ACTIONS_HELPER_APP_ID }}
+          private-key: ${{ secrets.GH_ACTIONS_HELPER_PK }}
+
+      - name: Release Please
+        uses: googleapis/release-please-action@v4
+        id: release
+        with:
+          manifest-file: ".release-please-manifest.json"
+          config-file: "release-please-config.json"
+          target-branch: "main"
+          token: ${{ steps.generate_token.outputs.token }}  # ← Changed from secrets.GITHUB_TOKEN
+    outputs:
+      paths_released: ${{ steps.release.outputs.paths_released }}
+      release_created: ${{ steps.release.outputs.release_created }}
+
+  publish-pypi:
+    name: Build and publish to PyPI
+    runs-on: ubuntu-latest
+    needs: release-please
+    # Only publish when a release is actually created
+    if: needs.release-please.outputs.release_created == 'true'
+    environment:
+      name: pypi
+      url: https://pypi.org/p/slabpick  # ← Make sure this matches your PyPI package name
+    permissions:
+      id-token: write # Required for trusted publishing
+    steps:
+      - name: Checkout
+        uses: actions/checkout@v4
+        with:
+          fetch-depth: 0
+
+      - name: Set up Python
+        uses: actions/setup-python@v5
+        with:
+          python-version: "3.12"
+
+      - name: Install build dependen
+        run: |
+          python -m pip install -U pip
+          python -m pip install build
+
+      - name: Build package
+        run: python -m build
+
+      - name: Publish to PyPI
+        uses: pypa/gh-action-pypi-publish@release/v1
+        with:
+          packages-dir: dist

.release-please-manifest.json

@@ -0,0 +1,4 @@
+{
+    ".": "1.0.0"
+}
+

README.md

@@ -8,6 +8,8 @@ curated in CryoSPARC or by Relion's 2D class averaging routine are also included
 
 ## Instructions for use
 
+### Slabpick with CryoSPARC
+
 The `make_minislabs` command will generate either galleries (per-particle projections tiled
 into mock micrographs) for use in CryoSPARC or particle stacks for use in Relion.
 
@@ -23,4 +25,6 @@ cs_center_picks —cs_file /path/to/picked_particles.cs —map_file path/to/gall
 4. After 2D classification, particles can be mapped back to a copick project or a Relion-4 starfile
 using the `cs_map_particles` command.
 
-Details for use in Relion to follow.
+### Slabpick with RELION
+
+Refer to the [Documentation](https://chanzuckerberg.github.io/py2rely/user-guide/2d-slab-classification/) for details

pyproject.toml

@@ -9,8 +9,7 @@ classifiers = [
     "Development Status :: 3 - Alpha",
     "License :: OSI Approved :: MIT License",
 ]
-#dynamic = ["version"]
-version = "0.1.0"
+dynamic = ["version"]
 dependencies = [
     "copick",
     "pydantic",
@@ -32,6 +31,9 @@ readme = "README.md"
 license = {file = "LICENSE"}
 keywords = ["cryoet", "cryo-et", "tomography"]
 
+[tool.hatch.version]
+path = "src/slabpick/__init__.py"
+
 [project.urls]
 Repository = "https://github.com/slabpick/slabpick.git"
 Issues = "https://github.com/slabpick/slabpick/issues"

release-please-config.json

@@ -0,0 +1,28 @@
+{
+  "release-type": "python",  
+  "changelog-sections": [
+    { "type": "feat", "section": "✨ Features" },
+    { "type": "fix", "section": "🐞 Bug Fixes" },
+    { "type": "perf", "section": "⚡️ Performance Improvements" },
+    { "type": "revert", "section": "↩️ Reverts" },
+    { "type": "docs", "section": "📝 Documentation" },
+    { "type": "style", "section": "💅 Styles" },
+    { "type": "chore", "section": "🧹 Miscellaneous Chores" },
+    { "type": "refactor", "section": "♻️ Code Refactoring" },
+    { "type": "test", "section": "🧪 Tests" },
+    { "type": "build", "section": "🛠️ Build System" },
+    { "type": "ci", "section": "⚙ Continuous Integration" }
+  ],
+  "packages": {
+    ".": {
+      "package-name": "slabpick",
+      "version-file": "slabpick/__init__.py",      
+      "changelog-path": "CHANGELOG.md",
+      "bump-minor-pre-major": false,
+      "bump-patch-for-minor-pre-major": false,
+      "draft": false,
+      "prerelease": false,
+      "pull-request-footer": "Slabpick on PyPI."
+    }
+  }
+}

src/slabpick/__init__.py

@@ -0,0 +1 @@
+__version__ = "1.0.0"